Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold205
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1179939
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.30
Warning! 53951 characters in sequence are not A, C, G, or T
File 2 of 7
Found at i:128284 original size:56 final size:55
Alignment explanation
Indices: 128117--128310 Score: 221
Period size: 56 Copynumber: 3.5 Consensus size: 55
128107 TAGCCAACTA
* *
128117 GTTTAGCTTTAGTTGAAATTGGCACCTAAATAAGAAAGTGGAAAAGTAACTGGTAG
1 GTTTAGCTCTAGTTGAAATTGGCACCTAAATAAGAAAGTGG-AAAGTAACCGGTAG
* * *
128173 CTTTAGCTTTAGTTGAAATTGGCACCTAAATAAGAAAGTGGAAAAGTAACGGGTAG
1 GTTTAGCTCTAGTTGAAATTGGCACCTAAATAAGAAAGTGG-AAAGTAACCGGTAG
* * * *
128229 GTTTAGCTCTAGTTGAAATCGGCACCTAGATAAGAAAACCTAGG-AA-TAGCCGGTAG
1 GTTTAGCTCTAGTTGAAATTGGCACCTAAATAAG-AAA-GT-GGAAAGTAACCGGTAG
* **
128285 GTTTAGATCTAGTTGGCATTGGCACC
1 GTTTAGCTCTAGTTGAAATTGGCACC
128311 CAGATGAAAG
Statistics
Matches: 122, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
56 114 0.93
57 5 0.04
58 1 0.01
59 2 0.02
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.27
Consensus pattern (55 bp):
GTTTAGCTCTAGTTGAAATTGGCACCTAAATAAGAAAGTGGAAAGTAACCGGTAG
Found at i:128341 original size:56 final size:56
Alignment explanation
Indices: 128281--128401 Score: 163
Period size: 56 Copynumber: 2.2 Consensus size: 56
128271 GGAATAGCCG
* * *
128281 GTAGGTTTAGATCTAGTTGGCATTGGCACCCAGATGAAAGAA-ACCAAAAGTAGCTA
1 GTAGGTTTAGATCCAATTGACATTGGCACCCAGATGAAA-AATACCAAAAGTAGCTA
* * * *
128337 GTAGGTTTAGATCCAATTGACATTGGCACCTAGATGAAAAATCCCAAGAGTAGCTG
1 GTAGGTTTAGATCCAATTGACATTGGCACCCAGATGAAAAATACCAAAAGTAGCTA
128393 GTAGGTTTA
1 GTAGGTTTA
128402 ACTTCAATCA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
55 2 0.04
56 55 0.96
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.26
Consensus pattern (56 bp):
GTAGGTTTAGATCCAATTGACATTGGCACCCAGATGAAAAATACCAAAAGTAGCTA
Found at i:129920 original size:20 final size:20
Alignment explanation
Indices: 129871--129922 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
129861 CACACCCAGA
129871 TGTATCGATACAAATTGCAT
1 TGTATCGATACAAATTGCAT
* * *
129891 TGTCTCGATACAACTTGCTT
1 TGTATCGATACAAATTGCAT
*
129911 TGTATTGATACA
1 TGTATCGATACA
129923 CTATGGAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATACAAATTGCAT
Found at i:131572 original size:3 final size:3
Alignment explanation
Indices: 131564--131591 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
131554 CAAAGCGAAC
131564 ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG A
131592 ACAAGAGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:132138 original size:21 final size:21
Alignment explanation
Indices: 132114--132154 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
132104 AGAAAATAAA
* *
132114 GAATTAACTAATAAAAACAAT
1 GAATTAACAAAGAAAAACAAT
132135 GAATTAACAAAGAAAAACAA
1 GAATTAACAAAGAAAAACAA
132155 AAACTTGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.66, C:0.10, G:0.07, T:0.17
Consensus pattern (21 bp):
GAATTAACAAAGAAAAACAAT
Found at i:134536 original size:33 final size:32
Alignment explanation
Indices: 134473--134537 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 32
134463 TTTGGGACAA
*
134473 TGTATTGATACAATTCTTCATGCATTGATACAT
1 TGTATTGATACAATTC-TCATGCATCGATACAT
*
134506 TGTATTGATACAATGTGC-CATGTATCGATACA
1 TGTATTGATACAAT-T-CTCATGCATCGATACA
134538 AACAGTGGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (32 bp):
TGTATTGATACAATTCTCATGCATCGATACAT
Found at i:134592 original size:20 final size:19
Alignment explanation
Indices: 134566--134639 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 19
134556 ACTGCCAGTT
134566 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
* *
134585 TGCATGTATCAATTCAATGA
1 T-CATGTATCGATACAATGA
* *
134605 TCATGTATTGATACAAAGCA
1 TCATGTATCGATACAATG-A
* *
134625 TAATGCATCGATACA
1 TCATGTATCGATACA
134640 TCTGGATGTG
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 16 0.37
20 27 0.63
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.32
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:141800 original size:21 final size:21
Alignment explanation
Indices: 141774--141850 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
141764 AATTTATCCA
*
141774 AATGTATTGATACATTCGTAG
1 AATGTATCGATACATTCGTAG
* *
141795 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTCGTAG
* *
141816 AATGTATCGATACATT-ATACA
1 AATGTATCGATACATTCGTA-G
141837 AATGTATCGATACA
1 AATGTATCGATACA
141851 AGGTCCCAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 1 0.02
21 48 0.98
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTCGTAG
Found at i:144435 original size:51 final size:51
Alignment explanation
Indices: 144380--144496 Score: 147
Period size: 51 Copynumber: 2.4 Consensus size: 51
144370 GATTCTCCGC
144380 AATCGGGGATA-TCCCAACTCCGATTTCATTT-TCAAAACA-CTAATTTTCTAT
1 AATCGGGGATACT-CCAACTCCGATTTCATTTCT-AAAACATC-AATTTTCTAT
*
144431 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACATCAA-TTT-T-T
1 AATCGGGGATACTCCAACTCCGATTTCATTTCTAAAACATCAATTTTCTAT
*
144479 CATCGGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
144497 CCCGTTAATC
Statistics
Matches: 61, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
48 18 0.30
49 1 0.02
50 3 0.05
51 36 0.59
52 3 0.05
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (51 bp):
AATCGGGGATACTCCAACTCCGATTTCATTTCTAAAACATCAATTTTCTAT
Found at i:144686 original size:79 final size:80
Alignment explanation
Indices: 144507--144686 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
144497 CCCGTTAATC
* * * * *
144507 ATCGGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCACCCCCCGGCATTACTTCTAAAA
1 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCACACCCCAGCATTACTTCTAAAA
* *
144572 TATTAATTTCTCATA
66 TACTAATTTCTCACA
* ** * **
144587 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCA-ACCTCAGTTTTA-TTTTCGAA
1 ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCACACCCCAGCATTACTTCTAAAA
144650 TCACTAATTT-TCCACA
66 T-ACTAATTTCT-CACA
144666 ATCGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
144687 GTTTTATTTT
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
78 7 0.08
79 38 0.45
80 40 0.47
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (80 bp):
ATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCACACCCCAGCATTACTTCTAAAA
TACTAATTTCTCACA
Found at i:145951 original size:13 final size:13
Alignment explanation
Indices: 145933--145957 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
145923 CAATTTTTTG
145933 TGTATCGATACAT
1 TGTATCGATACAT
145946 TGTATCGATACA
1 TGTATCGATACA
145958 AACTTGGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:145973 original size:32 final size:33
Alignment explanation
Indices: 145913--145976 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
145903 TACAAGCCAA
** *
145913 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
145946 TGTATCGATACAA-ACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
145977 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:147992 original size:13 final size:13
Alignment explanation
Indices: 147974--147998 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
147964 ACTGAAGCAA
147974 TGTATCGATACAT
1 TGTATCGATACAT
147987 TGTATCGATACA
1 TGTATCGATACA
147999 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:151638 original size:20 final size:20
Alignment explanation
Indices: 151613--151664 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
151603 TACAAGCTAA
** *
151613 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTGG
151633 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
151652 TGTATCGATACAA
1 TGTATCGATACAA
151665 GTTTGGCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:151670 original size:19 final size:18
Alignment explanation
Indices: 151613--151670 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 18
151603 TACAAGCTAA
*
151613 TGTATCGATACAATTTTTTG
1 TGTATCGATACAA--TTTGG
*
151633 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
151652 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
151671 CTACTACCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 1 0.03
19 19 0.58
20 12 0.36
21 1 0.03
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:151729 original size:20 final size:21
Alignment explanation
Indices: 151684--151736 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
151674 CTACCAAGAA
* **
151684 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTGTAAC
151705 ATGTATCGATACAT-TGTAAC
1 ATGTATCGATACATCTGTAAC
151725 ATGTATCGATAC
1 ATGTATCGATAC
151737 TTTGAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (21 bp):
ATGTATCGATACATCTGTAAC
Found at i:158228 original size:61 final size:60
Alignment explanation
Indices: 157979--158979 Score: 916
Period size: 55 Copynumber: 17.4 Consensus size: 60
157969 TCTTTTAGCC
*
157979 CTTCC-AGTCCTCAAAGAGCAGGACGCCTTTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTTCCTAGTCCTCAAAGAGCAGGACGCC-TTCT-C-TTTTAAAGCCCACACAAGTTGGTGGCA
* *
158041 CCTT--TAGTCCTCAAAAAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 -CTTCCTAGTCCTCAAAGAGCAGGACGCCTTCT-CTTTTAAAGCCCACACAAGTTGGTGGCA
* *
158101 CCTT--TAGTCCTCAAAGAGTAGGA----TGC-CTTTTAAAGCCCACACAAGTTGGTGGCA
1 -CTTCCTAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
158155 CTTCCCAGTCCTCAAAGAGCAAGACGCCTTCTCTTTTTAAAGCCCAAAGAAGTTGGTGGTA
1 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTCTC-TTTTAAAGCCCACACAAGTTGGTGGCA
* *
158216 CTTCCTAATCCTCAAAGAGCAGGA----TGC-CTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCA
*
158271 CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTCT-CTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
158332 CTTCCTAGTCCTCAAAGAGCAGGA----TGC-CTTTTAAAGCCGACACAAGTTGGTAGCA
1 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
158387 CTTCCTAGTCCTCAAAGAGCGGGACGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
158447 TTTTCC-AGTACTCAAAGAGTAGGATGCCTTTTTTTTTAAAGCCCACACAAGTTGGTGGCA
1 -CTTCCTAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCA
** * * *
158507 -TTTTTCAGTCCTCAAAGAGCAAGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CTTCCT-AGTCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
158567 CCTT-C-AGTCCTCAAAGAGCAGGA---C-AC-CTTTTCAAGCCAACACAAGTTGGTGGCA
1 -CTTCCTAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
158621 TTTTTCT-GTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAGCCCACACAAGTTGTTGGCA
1 -CTTCCTAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
158681 TTTTCTAGTCCTCAAAGAGTAGGAC-AC--CTC--TTAAAGCCCACACAAGTTAGTGGCA
1 CTTCCTAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
158736 CCTTTC-AGTTCC-CAAAGAGTAGGACACCTT-TC----AAAGCCCACACAAGTTGGTGGCA
1 -CTTCCTAG-TCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
158791 TTTTCC-AGCCCTCAAAGAGCAGGACACCTT-TC----AAAGCCCACACAAGTTGGTGGCA
1 -CTTCCTAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
158846 TTTTCC-AGTCCTCAAAGAGCAGGAC-AC--CTC--TTAAAGCCCACACAAGTTGGTGGCA
1 -CTTCCTAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
158901 CCTTTC-AGTCCTCAAAGAGCAGGACGCCTT-TC----CAAGCCCACACGAGTTGGTGGCA
1 -CTTCCTAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCA
** *
158956 CTTTTTAGTCCTTAAAGAGCAGGA
1 CTTCCTAGTCCTCAAAGAGCAGGA
158980 TACACTTTAT
Statistics
Matches: 812, Mismatches: 80, Indels: 100
0.82 0.08 0.10
Matches are distributed among these distances:
53 5 0.01
54 63 0.08
55 342 0.42
56 12 0.01
57 10 0.01
58 3 0.00
59 29 0.04
60 216 0.27
61 106 0.13
62 23 0.03
63 3 0.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (60 bp):
CTTCCTAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:158264 original size:116 final size:115
Alignment explanation
Indices: 158014--158979 Score: 1142
Period size: 116 Copynumber: 8.4 Consensus size: 115
158004 CCTTTTTCCT
*
158014 TTTTAAAGCCCACACAAGTTGGTGGCACCTTT--AGTCCTCAAAAAGCAGGACGCCTTTTCCTTT
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT-CTTT
* * *
158077 TAAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTCAAAGAGTAGGATGCC
64 TAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCC
* * *
158128 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAAGACGCCTTCTCTTTTT
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTC-TTTT
* * * * *
158193 AAAGCCCAAAGAAGTTGGTGGTA-CTTCCTAATCCTCAAAGAGCAGGATGCC
65 AAAGCCCACACAAGTTGGTGGCACCTTCC-AGTCCTCAAAGAGCAGGACGCC
* *
158244 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTT-TTCTTTT
*
158309 AAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGATGCC
65 AAAGCCCACACAAGTTGGTGGCACCTTCC-AGTCCTCAAAGAGCAGGACGCC
* * * *
158360 TTTTAAAGCCGACACAAGTTGGTAGCAC-TTCCTAGTCCTCAAAGAGCGGGACGCTTTTTCTTTT
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTTCC-AGTCCTCAAAGAGCAGGACGCCTTTTCTTTT
** * * *
158424 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTACTCAAAGAGTAGGATGCC
65 AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCC
* * * *
158475 TTTTTTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAAGATGCCTTTTC
1 -----TTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTC
*
158540 TTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACACC
61 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCC
* * * * * *
158594 TTTTCAAGCCAACACAAGTTGGTGGCATTTTTCTGTCCTCAAAGAGCAGGACGCCTTTTCTTTTC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTA
* ** * * *
158659 AAGCCCACACAAGTTGTTGGCATTTTCTAGTCCTCAAAGAGTAGGACACC
66 AAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCC
* * * *
158709 TCTTAAAGCCCACACAAGTTAGTGGCACCTTT-CAGTTCC-CAAAGAGTAGGACACC-TTTC---
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTTCCAG-TCCTCAAAGAGCAGGACGCCTTTTCTTT
** * *
158768 -AAAGCCCACACAAGTTGGTGGCATTTTCCAGCCCTCAAAGAGCAGGACACC
64 TAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCC
* * *
158819 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACC---TC--TTA
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTA
*
158879 AAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCC
66 AAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCC
** * ** *
158929 TTTCCAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTTAAAGAGCAGGA
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGA
158980 TACACTTTAT
Statistics
Matches: 751, Mismatches: 80, Indels: 46
0.86 0.09 0.05
Matches are distributed among these distances:
108 2 0.00
109 6 0.01
110 179 0.24
113 3 0.00
114 117 0.16
115 159 0.21
116 185 0.25
117 1 0.00
119 19 0.03
120 77 0.10
121 3 0.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (115 bp):
TTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTA
AAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGCC
Found at i:158775 original size:26 final size:26
Alignment explanation
Indices: 158693--158775 Score: 71
Period size: 26 Copynumber: 3.1 Consensus size: 26
158683 TTCTAGTCCT
158693 CAAAGAGTAGGACACCTCTT-AAAGCC
1 CAAAGAGTAGGACACCT-TTCAAAGCC
* ***
158719 CACACA-AGTTAGTGGCACCTTTCAGTTCC
1 CA-A-AGAG-TAG-GACACCTTTCAAAGCC
158748 CAAAGAGTAGGACACCTTTCAAAGCC
1 CAAAGAGTAGGACACCTTTCAAAGCC
158774 CA
1 CA
158776 CACAAGTTGG
Statistics
Matches: 43, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
26 16 0.37
27 7 0.16
28 9 0.21
29 11 0.26
ACGTcount: A:0.34, C:0.29, G:0.18, T:0.19
Consensus pattern (26 bp):
CAAAGAGTAGGACACCTTTCAAAGCC
Found at i:158800 original size:27 final size:27
Alignment explanation
Indices: 158770--158853 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
158760 CACCTTTCAA
158770 AGCCCACACAAGTTGGTGGCATTTTCC
1 AGCCCACACAAGTTGGTGGCATTTTCC
* * ** * *
158797 AGCCCTCA-AAG-AGCAGGACACCTTTCAA
1 AGCCCACACAAGTTGGTGG-CA-TTTTC-C
158825 AGCCCACACAAGTTGGTGGCATTTTCC
1 AGCCCACACAAGTTGGTGGCATTTTCC
158852 AG
1 AG
158854 TCCTCAAAGA
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 13 0.32
28 11 0.28
29 5 0.12
30 3 0.08
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (27 bp):
AGCCCACACAAGTTGGTGGCATTTTCC
Found at i:158850 original size:28 final size:28
Alignment explanation
Indices: 158764--158850 Score: 81
Period size: 28 Copynumber: 3.1 Consensus size: 28
158754 GTAGGACACC
158764 TTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCAAAGCCCACACAAGTTGGTGGCAT
* * * ** *
158792 TTTC-CAGCCCTCA-AAG-AGCAGGACACC
1 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
158819 TTTCAAAGCCCACACAAGTTGGTGGCAT
1 TTTCAAAGCCCACACAAGTTGGTGGCAT
158847 TTTC
1 TTTC
158851 CAGTCCTCAA
Statistics
Matches: 42, Mismatches: 12, Indels: 10
0.66 0.19 0.16
Matches are distributed among these distances:
25 3 0.07
26 5 0.12
27 11 0.26
28 15 0.36
29 5 0.12
30 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (28 bp):
TTTCAAAGCCCACACAAGTTGGTGGCAT
Found at i:159754 original size:21 final size:21
Alignment explanation
Indices: 159728--159804 Score: 93
Period size: 21 Copynumber: 3.7 Consensus size: 21
159718 AAATTATCCA
159728 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
* *
159749 AATGTATCAATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* * *
159770 AATGTATCGACACATTAT-AAA
1 AATGTATCGATACATT-TGTAG
159791 AATGTATCGATACA
1 AATGTATCGATACA
159805 AGGTCTCAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
21 46 0.98
22 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.34
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:159910 original size:19 final size:19
Alignment explanation
Indices: 159840--159902 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
159830 ATTTCAGCGA
*
159840 TTTGTATCGATACATAAGT
1 TTTGTACCGATACATAAGT
*
159859 ATTGTACCGATACATAAGT
1 TTTGTACCGATACATAAGT
159878 TTTGTACCGATACATAAGT
1 TTTGTACCGATACATAAGT
159897 TTTGTA
1 TTTGTA
159903 TCAATACAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.40
Consensus pattern (19 bp):
TTTGTACCGATACATAAGT
Found at i:159980 original size:13 final size:13
Alignment explanation
Indices: 159962--159987 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
159952 CATTTTTTTG
159962 TGTATCGATACAT
1 TGTATCGATACAT
159975 TGTATCGATACAT
1 TGTATCGATACAT
159988 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:162395 original size:51 final size:51
Alignment explanation
Indices: 162335--162451 Score: 154
Period size: 51 Copynumber: 2.4 Consensus size: 51
162325 GATTCTTCGC
*
162335 AATCGGGGATA-TCCCAACTCCGATTTCATTT-TCAAAACATTAATTTTCTAT
1 AATCGGGGATACT-CCAACTCCGATTTCATTTCT-AAAACATCAATTTTCTAT
*
162386 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACATCAA-TTT-T-T
1 AATCGGGGATACTCCAACTCCGATTTCATTTCTAAAACATCAATTTTCTAT
*
162434 CATCGGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
162452 CCCATTAATC
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
48 18 0.30
49 1 0.02
50 3 0.05
51 37 0.61
52 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (51 bp):
AATCGGGGATACTCCAACTCCGATTTCATTTCTAAAACATCAATTTTCTAT
Found at i:162505 original size:28 final size:27
Alignment explanation
Indices: 162433--162509 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 27
162423 CATCAATTTT
162433 TCATCGGGGATACTCCAACCCCATTAA
1 TCATCGGGGATACTCCAACCCCATTAA
*
162460 TCATCGGGGATACTCCAACCCCGTT-A
1 TCATCGGGGATACTCCAACCCCATTAA
**
162486 TTTTCGAGGGGATACTCCAACCCC
1 TCATC--GGGGATACTCCAACCCC
162510 CGGCTTTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.09
27 24 0.53
28 17 0.38
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (27 bp):
TCATCGGGGATACTCCAACCCCATTAA
Found at i:162649 original size:51 final size:51
Alignment explanation
Indices: 162573--162742 Score: 187
Period size: 52 Copynumber: 3.3 Consensus size: 51
162563 TTATCTCCGA
* ** * *
162573 GGGGATACTCCAACCTCGGTTTTATTTTTGAATCACTAATTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTAAAAACACCAATTTTCCACAATC
* **
162624 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTTAAAAACACCAATTTTCC-ACAATC
* * * * * *
162676 GGGGATACCCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTT-TAAAAACACCAATTTTCCACAATC
*
162728 GAGGATACTCCAACC
1 GGGGATACTCCAACC
162743 TCATTATTTC
Statistics
Matches: 98, Mismatches: 19, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
51 40 0.41
52 43 0.44
53 15 0.15
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTTAAAAACACCAATTTTCCACAATC
Found at i:162843 original size:107 final size:108
Alignment explanation
Indices: 162676--162883 Score: 269
Period size: 107 Copynumber: 1.9 Consensus size: 108
162666 TCCTTTAATC
*
162676 GGGGATACCCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACCCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTCACAACCGAGGATACTCCAA
* * *
162741 CCTCATTA-TTTCATCGGGGATACTCTAACCCCGTTACCTCCGA
66 CCCCATTATTTTCA-AGGGGATACTCCAACCCCGTTACCTCCGA
* * * * * *
162784 GGGGATACTCCAA-TTTCGATTTTATTTCC-TAATCATCAATTTTTCACAACCGGGGATACTCCA
1 GGGGATACCCCAACTCT-GATTTTATTTCCAAAAACACCAATTTTTCACAACCGAGGATACTCCA
* *
162847 ACCCCGTTATTTTCAAGGGGATACTCCAACCTCGTTA
65 ACCCCATTATTTTCAAGGGGATACTCCAACCCCGTTA
162884 TTATCTCCAA
Statistics
Matches: 86, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
107 57 0.66
108 29 0.34
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (108 bp):
GGGGATACCCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTCACAACCGAGGATACTCCAA
CCCCATTATTTTCAAGGGGATACTCCAACCCCGTTACCTCCGA
Found at i:162852 original size:290 final size:285
Alignment explanation
Indices: 162334--162880 Score: 731
Period size: 290 Copynumber: 1.9 Consensus size: 285
162324 CGATTCTTCG
* ** *
162334 CAATCGGGGATATCCCAACTCCGATTTCATTTTCAAAACATTAATTTTCTATAATCGGGGATACT
1 CAATCGGGGATATCCCAACCCCGATTTCATTTTCAAAACACCAATTTTCTATAATCGGGGATACC
* * *
162399 CCAACTCCGATTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCCATTAATCAT
66 CCAACTCCGATTTTATTTCAAAAACACCAATTTTTCATCGAGGATACTCCAACCCCATTAATCAT
** * *
162464 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCCGGCTTTATTTCCAAAATA
131 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCCGACTTTATTTCCAAAATA
* * * *
162529 TTAATTTCTCATAATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCTCGGTT
196 TCAATTTCTCACAACCGGGGATACTCCAACCCCGTTATCTCCAAGGGGATACTCCAACCTCGGTT
162594 TTATTTTTGAATCACTAATTTTCCA
261 TTATTTTTGAATCACTAATTTTCCA
* * *
162619 CAATCGGGGATA-CTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
1 CAATCGGGGATATC-CCAACCCCGATTTCATTTTCAAAACACCAATTTT-CTATAATCGGGGATA
* *
162683 CCCCAACTCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCATT
64 CCCCAACTCCGATTTTATTT-CAAAAACACCAATTTTT--C-ATCGAGGATACTCCAACCCCATT
* * *** *
162748 ATTTCATCGGGGATACTCTAACCCCGTTACCTCCGAGGGGATACTCCAA-TTTCGATTTTATTTC
125 A-ATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCCGACTTTATTTC
* * * *
162812 C-TAATCATCAATTTTTCACAACCGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAA
189 CAAAAT-ATCAATTTCTCACAACCGGGGATACTCCAACCCCGTTATCTCCAAGGGGATACTCCAA
162876 CCTCG
253 CCTCG
162881 TTATTATCTC
Statistics
Matches: 224, Mismatches: 30, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
284 1 0.00
285 41 0.18
286 32 0.14
287 15 0.07
289 4 0.02
290 89 0.40
291 42 0.19
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (285 bp):
CAATCGGGGATATCCCAACCCCGATTTCATTTTCAAAACACCAATTTTCTATAATCGGGGATACC
CCAACTCCGATTTTATTTCAAAAACACCAATTTTTCATCGAGGATACTCCAACCCCATTAATCAT
CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCCGACTTTATTTCCAAAATA
TCAATTTCTCACAACCGGGGATACTCCAACCCCGTTATCTCCAAGGGGATACTCCAACCTCGGTT
TTATTTTTGAATCACTAATTTTCCA
Found at i:167110 original size:52 final size:52
Alignment explanation
Indices: 167040--167160 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
167030 GAAAATTTAT
*
167040 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAATTTGC
* *
167092 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAATTTGC
167144 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
167161 AAGATCGGTG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGCAAATTTGC
Found at i:167173 original size:52 final size:52
Alignment explanation
Indices: 167040--167180 Score: 187
Period size: 52 Copynumber: 2.7 Consensus size: 52
167030 GAAAATTTAT
*
167040 CTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTAGGCAAATTTGC
1 CTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTAGGCAAATTTGC
* *** *
167092 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTAGGCAAATTTGC
1 CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTAGGCAAATTTGC
*
167144 CTGCATGTATCGATACA-AAGATCGGTGTATCGATACA
1 CTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
167181 ATGTATCGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 4 0.05
52 74 0.95
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (52 bp):
CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTAGGCAAATTTGC
Found at i:167187 original size:13 final size:13
Alignment explanation
Indices: 167169--167193 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
167159 CAAAGATCGG
167169 TGTATCGATACAA
1 TGTATCGATACAA
167182 TGTATCGATACA
1 TGTATCGATACA
167194 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:169362 original size:20 final size:20
Alignment explanation
Indices: 169336--169430 Score: 81
Period size: 20 Copynumber: 4.8 Consensus size: 20
169326 ACTGCTAGTT
*
169336 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAACTGA
169355 TGCATGTATCGATAC-ACTGA
1 T-CATGTATCGATACAACTGA
*
169375 TCATGTATCGATACAA-AGCA
1 TCATGTATCGATACAACTG-A
* * *
169395 TAATGTATTGATACATCTGGA
1 TCATGTATCGATACAACT-GA
*
169416 T-GTGTATCGATACAA
1 TCATGTATCGATACAA
169431 ACAAAGGTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
19 18 0.30
20 40 0.66
21 2 0.03
22 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.33
Consensus pattern (20 bp):
TCATGTATCGATACAACTGA
Found at i:169553 original size:21 final size:21
Alignment explanation
Indices: 169529--169573 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
169519 AAAATATTCG
169529 ATTTA-AAGCTTGAAAACATTT
1 ATTTATAAGCTTG-AAACATTT
**
169550 ATTTATAATTTTGAAACATTT
1 ATTTATAAGCTTGAAACATTT
169571 ATT
1 ATT
169574 GATATTGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (21 bp):
ATTTATAAGCTTGAAACATTT
Found at i:172759 original size:20 final size:20
Alignment explanation
Indices: 172736--172808 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
172726 CACACCCAGA
*
172736 TGTATCAATACAAATTGCAT
1 TGTATCGATACAAATTGCAT
* *
172756 TGTATCGATACAACTTGCTT
1 TGTATCGATACAAATTGCAT
* *
172776 TGTATCGATACACAATGGAAT
1 TGTATCGATACA-AATTGCAT
*
172797 TTTATCGATACA
1 TGTATCGATACA
172809 CAAAACTAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
20 29 0.66
21 15 0.34
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (20 bp):
TGTATCGATACAAATTGCAT
Found at i:174902 original size:13 final size:13
Alignment explanation
Indices: 174884--174909 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
174874 TACACAAAGT
174884 ATGTATCGATACA
1 ATGTATCGATACA
174897 ATGTATCGATACA
1 ATGTATCGATACA
174910 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:174907 original size:32 final size:33
Alignment explanation
Indices: 174866--174929 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
174856 TAGCCAAACT
**
174866 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
174898 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
174930 TTGGCTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:175431 original size:34 final size:35
Alignment explanation
Indices: 175368--175434 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
175358 CTAAGTGATT
175368 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
175404 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
175435 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:176135 original size:21 final size:21
Alignment explanation
Indices: 176111--176151 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
176101 AGAAAATAAA
* *
176111 GAATTAACTAATAAAAACAAT
1 GAATTAACAAAGAAAAACAAT
176132 GAATTAACAAAGAAAAACAA
1 GAATTAACAAAGAAAAACAA
176152 AAACTTGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.66, C:0.10, G:0.07, T:0.17
Consensus pattern (21 bp):
GAATTAACAAAGAAAAACAAT
Found at i:179457 original size:24 final size:25
Alignment explanation
Indices: 179430--179478 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
179420 AAAAAAAGAG
*
179430 AAATTGTT-TGTGTAAATTTGGCTA
1 AAATTGTTGTGTATAAATTTGGCTA
179454 AAATTGTTGGTGTATAAATTTGGCT
1 AAATTGTT-GTGTATAAATTTGGCT
179479 TATAACAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.36
26 14 0.64
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.45
Consensus pattern (25 bp):
AAATTGTTGTGTATAAATTTGGCTA
Found at i:179548 original size:26 final size:25
Alignment explanation
Indices: 179493--179549 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
179483 ACAAAAAAGG
179493 GGAG-AGTGTTTAAATGGGGAGAAAT
1 GGAGAAGTGTTTAAA-GGGGAGAAAT
*
179518 AGAGAAGTGTTATAAA-GGGAGAAATT
1 GGAGAAGTGTT-TAAAGGGGAGAAA-T
179544 GGAGAA
1 GGAGAA
179550 ATTGTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 11 0.41
26 12 0.44
27 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.21
Consensus pattern (25 bp):
GGAGAAGTGTTTAAAGGGGAGAAAT
Found at i:180229 original size:20 final size:20
Alignment explanation
Indices: 180206--180257 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
180196 CACACCCAGA
180206 TGTATCGATACAAATTGCAT
1 TGTATCGATACAAATTGCAT
* **
180226 TGTATCGATACAACTTGTTT
1 TGTATCGATACAAATTGCAT
180246 TGTATCGATACA
1 TGTATCGATACA
180258 TTATGGAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATACAAATTGCAT
Found at i:182209 original size:50 final size:49
Alignment explanation
Indices: 182109--182255 Score: 147
Period size: 49 Copynumber: 3.0 Consensus size: 49
182099 CATAAGAAAC
* * * * *
182109 TGAGTTTTTTAGGGTTAGTTTAGTAATTTGCATC-AAACTAAC-AAATAT
1 TGAGTTTTTTAAGGTTACTTTTGTACTTTGCGTCAAAACTAACTAAA-AT
* *
182157 TGAGTTTTTTTAAGGTTATTTTTGTACTTTTCGTCAAAACTAACTAAAAT
1 TGAG-TTTTTTAAGGTTACTTTTGTACTTTGCGTCAAAACTAACTAAAAT
** * *
182207 TGAGCCTTTTAAGATTACTTTTGTAC-TTGCAGTCAAAACTAGCTAAAAT
1 TGAGTTTTTTAAGGTTACTTTTGTACTTTGC-GTCAAAACTAACTAAAAT
182256 AGAACCTCTA
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
48 7 0.08
49 59 0.71
50 14 0.17
51 3 0.04
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (49 bp):
TGAGTTTTTTAAGGTTACTTTTGTACTTTGCGTCAAAACTAACTAAAAT
Found at i:187135 original size:37 final size:36
Alignment explanation
Indices: 187086--187212 Score: 109
Period size: 37 Copynumber: 3.5 Consensus size: 36
187076 CTTTTTCAGG
*
187086 ATTAGTTTTGTACCTTTTTTCAAAATCGAATTTTAAT
1 ATTAGTTTTGTA-CTTTTTTCAAAATCGAATTTTAAA
* ** *
187123 ATTAGTTTTGTACTTCTTGTT-GAAATCGAGCTTTAAG
1 ATTAGTTTTGTACTT-TT-TTCAAAATCGAATTTTAAA
* *
187160 ATTAG-TTTCTACTTTTTGTCAAAAT-TAAGTTATTAAA
1 ATTAGTTTTGTACTTTTT-TCAAAATCGAA-TT-TTAAA
187197 ATTAGTTTTGTA-TTTT
1 ATTAGTTTTGTACTTTT
187213 ATATTGAAAT
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
34 1 0.01
35 4 0.06
36 16 0.22
37 44 0.61
38 7 0.10
ACGTcount: A:0.28, C:0.09, G:0.12, T:0.51
Consensus pattern (36 bp):
ATTAGTTTTGTACTTTTTTCAAAATCGAATTTTAAA
Found at i:187201 original size:74 final size:75
Alignment explanation
Indices: 187085--187259 Score: 198
Period size: 74 Copynumber: 2.3 Consensus size: 75
187075 TCTTTTTCAG
* *
187085 GATTAGTTTTGTACCTTTTT-TCAAAATCGAATTTTAATATTAGTTTTGTACTTCT-TGTTGAAA
1 GATTAGTTTTGTA-CTTTTTGTCAAAATCGAATTTTAAAATTAGTTTTGTA-TTCTATATTGAAA
*
187148 TCGAGC-TTTAA
64 TCAAGCTTTTAA
* * *
187159 GATTAG-TTTCTACTTTTTGTCAAAAT-TAAGTTATTAAAATTAGTTTTGTATTTTATATTGAAA
1 GATTAGTTTTGTACTTTTTGTCAAAATCGAA-TT-TTAAAATTAGTTTTGTATTCTATATTGAAA
*
187222 TCAAGCTTTTCA
64 TCAAGCTTTTAA
* *
187234 GATAAGTTTTGTACTTTGTGTCAAAA
1 GATTAGTTTTGTACTTTTTGTCAAAA
187260 CCAAGTGTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
72 8 0.09
73 17 0.20
74 34 0.40
75 9 0.11
76 17 0.20
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (75 bp):
GATTAGTTTTGTACTTTTTGTCAAAATCGAATTTTAAAATTAGTTTTGTATTCTATATTGAAATC
AAGCTTTTAA
Found at i:189452 original size:20 final size:20
Alignment explanation
Indices: 189427--189478 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
189417 TACAAGCCAA
**
189427 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
189447 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
189466 TGTATCGATACAA
1 TGTATCGATACAA
189479 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:194166 original size:15 final size:15
Alignment explanation
Indices: 194130--194167 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
194120 TTCATCAATT
* *
194130 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
194145 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
194160 TCATTTTG
1 TCATTTTG
194168 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:195999 original size:21 final size:21
Alignment explanation
Indices: 195970--196014 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
195960 AAGTTTTTAT
*
195970 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
195990 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
196012 TTT
1 TTT
196015 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:198250 original size:20 final size:20
Alignment explanation
Indices: 198225--198276 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
198215 TACAAGCCAA
**
198225 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATAATTTG
198245 TGTATCGATAC-ATAATTTG
1 TGTATCGATACAATAATTTG
198264 TGTATCGATACAA
1 TGTATCGATACAA
198277 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATAATTTG
Found at i:201365 original size:57 final size:57
Alignment explanation
Indices: 201297--201405 Score: 209
Period size: 57 Copynumber: 1.9 Consensus size: 57
201287 AATATCTTGG
201297 TGATTTGACCAACATGTTTTATTATGCTTAGGTGATTTTTTCTTCATTTCCTCATTT
1 TGATTTGACCAACATGTTTTATTATGCTTAGGTGATTTTTTCTTCATTTCCTCATTT
*
201354 TGATTTGACCAAGATGTTTTATTATGCTTAGGTGATTTTTTCTTCATTTCCT
1 TGATTTGACCAACATGTTTTATTATGCTTAGGTGATTTTTTCTTCATTTCCT
201406 GATTCGATCT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.19, C:0.15, G:0.14, T:0.52
Consensus pattern (57 bp):
TGATTTGACCAACATGTTTTATTATGCTTAGGTGATTTTTTCTTCATTTCCTCATTT
Found at i:207579 original size:429 final size:427
Alignment explanation
Indices: 206681--207955 Score: 2166
Period size: 427 Copynumber: 3.0 Consensus size: 427
206671 TTTAATTTTG
* *
206681 GGTTGTAAATTTTATCCTCACCTAACTTTCCTTGAATGTAACTCGATACAAAAATATGTAATAGT
1 GGTTGTAAATTTTATCCTCACCTAACTTTCCTCGAATGTAACTCGATACAATAATATGTAATAGT
* * * *
206746 TACATAAGACTTGTTGATTTAAGATTAGAATAAGATTAAAATTTATATAAATCTAAGATGTAAAG
66 TACATAAGACTTGTTGATTTAGGATTAGGATAAGATTAGAATTTATATAAATCCAAGATGTAAAG
* *
206811 AAAATGGCACCAAGAAGAAAAAACCAAGGAAATTACCACTAAGACTTGCGAAGACC-----TGAT
131 AAAATGGCACCAAGAAGAAAAAACCAAGGAGATTACCATTAAGACTTGCGAAGACCTTATATGAT
* * *
206871 ATCCTTAGGAATTTGACCAACTAATTCCTAATGGATTAAGGAAACTAGATAGATAAAATCCATAA
196 ATCCTTAGGAATTTGACCAACTAGTTCCTAATGGCTTAAGGAAACTAGATAGATAAAGTCCATAA
* * *
206936 TCATTCTAGTAGATTCCATGTGTTAGATTTATTTTTGAATTTATATAATTGAATAAATGCTATTC
261 TCATCCTAGTAGATTGCATGCGTTAGATTTATTTTTGAATTTATATAATTGAATAAATGCTATTC
*
207001 ATGCTAATCAAAC-AAGCAATGAGACCTAAGATAAATGATAAAAATCCCTCGTAAAAAATTAAAT
326 ATGCTAATCAAACAAAGCAATGAGACCTAAGATAAATGATAAAAATCCCTCATAAAAAATTAAAT
* *
207065 CCATGCTAAAGCATGATTAGTCTCTTCCATTATTCTG
391 CCATGCCAAAGCATGATTAGTCTCTTCCATTATTCTA
207102 GGTTGTAAATTTTATCCTCACCTAACTTTCCTCGAATGTAACTCGATACAATAATATGTAATAGT
1 GGTTGTAAATTTTATCCTCACCTAACTTTCCTCGAATGTAACTCGATACAATAATATGTAATAGT
* *
207167 TACATAAGACTTGTTGATTTAGGATTAGGATAAGATTAGACTTTATATAAACCCAAGATGTAAAG
66 TACATAAGACTTGTTGATTTAGGATTAGGATAAGATTAGAATTTATATAAATCCAAGATGTAAAG
*
207232 AAAACGGCACCAAGAAGAAAAATGACCAAGGAGATTACCATTAAGACTTGCGAAGACCTTATATG
131 AAAATGGCACCAAGAAGAAAAA--ACCAAGGAGATTACCATTAAGACTTGCGAAGACCTTATATG
207297 ATATCCTTAGGAATTTGACCAACTAGTTCCTAATGGCTTAAGGAAACTAGATAGATAAAGTCCAT
194 ATATCCTTAGGAATTTGACCAACTAGTTCCTAATGGCTTAAGGAAACTAGATAGATAAAGTCCAT
* *
207362 AATCATCCTAGTAGATTGCATGCCTTAGATTTATTTTTGAATTTATATAATTAAATAAATGCTAT
259 AATCATCCTAGTAGATTGCATGCGTTAGATTTATTTTTGAATTTATATAATTGAATAAATGCTAT
* * * *
207427 TCATGCTAATTAATCAAAGCAATGAGACCTAAGATAAATGAAAAAAATCCTTCATAAAAAATTAA
324 TCATGCTAATCAAACAAAGCAATGAGACCTAAGATAAATGATAAAAATCCCTCATAAAAAATTAA
207492 ATCCATGCCAAAGCATGATTAGTCTCTTCCATTATTCTA
389 ATCCATGCCAAAGCATGATTAGTCTCTTCCATTATTCTA
207531 GGTTGTAAATTTTATCCTCACCTAACTTTCCTCGAATGTAACTCGATACAATAATATGTAATAGT
1 GGTTGTAAATTTTATCCTCACCTAACTTTCCTCGAATGTAACTCGATACAATAATATGTAATAGT
* *
207596 TACATAAGACTTGTTGATTTAGGATTAGGATAAAATTAGAATTTATATAAATCCAAGATATAAAG
66 TACATAAGACTTGTTGATTTAGGATTAGGATAAGATTAGAATTTATATAAATCCAAGATGTAAAG
* *
207661 AAAATGGCACCAAGAAGAAAAAACCAAGGAGGTTACCATTAAGACTTGCAAAGACCTTATATGAT
131 AAAATGGCACCAAGAAGAAAAAACCAAGGAGATTACCATTAAGACTTGCGAAGACCTTATATGAT
*
207726 ATCCTTAGGAATTTGACCAACTAGTTCCTAATGGCTTAAGGAAACTAGATAGATAAAGTCCACAA
196 ATCCTTAGGAATTTGACCAACTAGTTCCTAATGGCTTAAGGAAACTAGATAGATAAAGTCCATAA
*
207791 TCATCCTAGTAGATTGCATGGGTTAGATTTATTTTTGAATTTATATAATTGAATAAATGCTATTC
261 TCATCCTAGTAGATTGCATGCGTTAGATTTATTTTTGAATTTATATAATTGAATAAATGCTATTC
* *
207856 ATGCTAATCAAACATAGCAATAAGACCTAAGATAAATGATAAAAATCCCTCATAAAAAATTAAAT
326 ATGCTAATCAAACAAAGCAATGAGACCTAAGATAAATGATAAAAATCCCTCATAAAAAATTAAAT
* *
207921 CCATGCCAAAGCATGTTTAGTCTCTTTCATTATTC
391 CCATGCCAAAGCATGATTAGTCTCTTCCATTATTC
207956 ATAATAGGAT
Statistics
Matches: 801, Mismatches: 45, Indels: 10
0.94 0.05 0.01
Matches are distributed among these distances:
421 143 0.18
423 32 0.04
427 259 0.32
428 137 0.17
429 230 0.29
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (427 bp):
GGTTGTAAATTTTATCCTCACCTAACTTTCCTCGAATGTAACTCGATACAATAATATGTAATAGT
TACATAAGACTTGTTGATTTAGGATTAGGATAAGATTAGAATTTATATAAATCCAAGATGTAAAG
AAAATGGCACCAAGAAGAAAAAACCAAGGAGATTACCATTAAGACTTGCGAAGACCTTATATGAT
ATCCTTAGGAATTTGACCAACTAGTTCCTAATGGCTTAAGGAAACTAGATAGATAAAGTCCATAA
TCATCCTAGTAGATTGCATGCGTTAGATTTATTTTTGAATTTATATAATTGAATAAATGCTATTC
ATGCTAATCAAACAAAGCAATGAGACCTAAGATAAATGATAAAAATCCCTCATAAAAAATTAAAT
CCATGCCAAAGCATGATTAGTCTCTTCCATTATTCTA
Found at i:210030 original size:167 final size:165
Alignment explanation
Indices: 209766--210115 Score: 370
Period size: 167 Copynumber: 2.1 Consensus size: 165
209756 TCCGTACAGC
* * * * * *
209766 TTTTCAGGAGGATTTTTCTTAATTTTTAATTTTCAAATTGATCAAACATCTTTATTTATTATATA
1 TTTTGAGG-GGATTTTTCTCAATTTTCAATTTTAAAATTCATCAAACATCATTATTTATTATATA
* *
209831 TTAATTCAGTTTTCAAAAATTCAGTTATTTTCATGAGTTTTAGATTTTTTTCCTTGAAACTCCAC
65 TTAATTCAGTTTTCAAAAATTCAATTATTTTCATGAGCTTTAGATTTTTTT-CTTGAAACTCCAC
*
209896 TTTTTTTCTA-AAATACGATGTTTTCTACTCCGT-AATTT
129 -TTTTTTCGAGAAA-ACGA-GTTTTCTACTCCGTAAATTT
* * *
209934 TTTTGAGGGGATTTTTCTCAGTTTTCAATTTTTAAAATTCATCGAATATCATTATTTATT-TCAC
1 TTTTGAGGGGATTTTTCTCAATTTTCAA-TTTTAAAATTCATCAAACATCATTATTTATTAT-A-
* * * * * *
209998 T-TTAATTTAGTTTT-AAAAATT-AATTCATTTTCATGTGCTTTGGATTTTTTTGTTGAAATTTC
63 TATTAATTCAGTTTTCAAAAATTCAATT-ATTTTCATGAGCTTTAGATTTTTTTCTTGAAACTCC
* * *
210060 TCTTTTTTCGAGAAACCGAGTTTTCTTCTCCGTAAATTT
127 ACTTTTTTCGAGAAAACGAGTTTTCTACTCCGTAAATTT
* *
210099 TTTCGGGGGGATTTTTC
1 TTTTGAGGGGATTTTTC
210116 CTGGTTTAGA
Statistics
Matches: 153, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
164 13 0.08
165 31 0.20
166 15 0.10
167 47 0.31
168 46 0.30
169 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.11, T:0.51
Consensus pattern (165 bp):
TTTTGAGGGGATTTTTCTCAATTTTCAATTTTAAAATTCATCAAACATCATTATTTATTATATAT
TAATTCAGTTTTCAAAAATTCAATTATTTTCATGAGCTTTAGATTTTTTTCTTGAAACTCCACTT
TTTTCGAGAAAACGAGTTTTCTACTCCGTAAATTT
Found at i:210131 original size:165 final size:168
Alignment explanation
Indices: 209831--210140 Score: 373
Period size: 165 Copynumber: 1.9 Consensus size: 168
209821 TTATTATATA
* *
209831 TTAATTCAGTTTTCAAAAATTCAGTTATTTTCATGAGTTTTAGATTTTTTTCCTTGAAACTCCAC
1 TTAATTCAGTTTTCAAAAATTCAATTATTTTCATGAGCTTTAGATTTTTTTCCTTGAAACTCCAC
* * *
209896 TTTTTTTCTAAAATACGATGTTTTCTACTCCGTAATTTTTTTGAGGGGATTTTTCTCAGTTTTCA
66 TTTTTTTCGAAAATACGATGTTTTCTACTCCGTAATTTTTTCGAGGGGATTTTTCTCAGTTTACA
*
209961 ATTTTTAAAATTCATCGAATATCATTATTTATTTCACT
131 ATTTTTAAAACTCATCGAATATCATTATTTATTTCACT
* * * * * * *
209999 TTAATTTAGTTTT-AAAAATT-AATTCATTTTCATGTGCTTTGGATTTTTTT-GTTGAAATTTCT
1 TTAATTCAGTTTTCAAAAATTCAATT-ATTTTCATGAGCTTTAGATTTTTTTCCTTGAAACTCCA
* * * *
210061 C-TTTTTTCGAGAAA-CCGA-GTTTTCTTCTCCGTAAATTTTTTCGGGGGGATTTTTC-CTGGTT
65 CTTTTTTTCGA-AAATACGATGTTTTCTACTCCGT-AATTTTTTCGAGGGGATTTTTCTC-AGTT
*
210122 TAGAATTTTTAAAACTCAT
127 TACAATTTTTAAAACTCAT
210141 ATAATGTTGT
Statistics
Matches: 120, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
164 14 0.12
165 50 0.42
166 15 0.12
167 29 0.24
168 12 0.10
ACGTcount: A:0.25, C:0.13, G:0.12, T:0.50
Consensus pattern (168 bp):
TTAATTCAGTTTTCAAAAATTCAATTATTTTCATGAGCTTTAGATTTTTTTCCTTGAAACTCCAC
TTTTTTTCGAAAATACGATGTTTTCTACTCCGTAATTTTTTCGAGGGGATTTTTCTCAGTTTACA
ATTTTTAAAACTCATCGAATATCATTATTTATTTCACT
Found at i:210577 original size:21 final size:22
Alignment explanation
Indices: 210524--210566 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
210514 CTAGCAAAGG
* *
210524 GAGAAGAAAAAGAGAAATAAAA
1 GAGAGGAAAAAGAGAAAGAAAA
210546 GAGAGGAAAAA-AGAAAGAAAA
1 GAGAGGAAAAAGAGAAAGAAAA
210567 ATAGTGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (22 bp):
GAGAGGAAAAAGAGAAAGAAAA
Found at i:211666 original size:163 final size:162
Alignment explanation
Indices: 211355--211804 Score: 616
Period size: 163 Copynumber: 2.7 Consensus size: 162
211345 CATCTACTAG
* * *
211355 TTTTTAATCTTTTTTATTCCTATGAGTAACTGTAAGGGTATAAAAGATTCTAAAAAACTTTTTGT
1 TTTTTAATCTTTTATATTCCTATGGGTATCTGTAAGGGTATAAAAGATTCTAAAAAAC-TTTTGT
* * * *
211420 TTCTCTTC-GAGTATCCATTAAGGTA-TGAAATAATTGTTATTCCAAAAATAAATAAGTAATATT
65 ATCT-TTCAG-GTATCCATTAAGGTACT-AAATGATT-TTTTTCCAAAAATAAATAAATAATATT
*
211483 AAATTCACTCCCCATTAATTACAACAAATATTAATCA
126 AAATTCACTCACCATTAATTACAACAAATATTAATCA
* * * * *
211520 TTTTTAATCTTTTATATTCCTCTGGGTATCCGTAGGGGAATGAAAGATTCTAAAAAACTTTTCGT
1 TTTTTAATCTTTTATATTCCTATGGGTATCTGTAAGGGTATAAAAGATTCTAAAAAACTTTT-GT
*
211585 ATCTTTCAGGTATCCATTAAGGTACTAAATGATTTTTTTTCAAAAATAAATAAATAATATTAAAT
65 ATCTTTCAGGTATCCATTAAGGTACTAAATGATTTTTTTCCAAAAATAAATAAATAATATTAAAT
*
211650 TCACTCACCATTAATTACAACAAATATTAATCG
130 TCACTCACCATTAATTACAACAAATATTAATCA
* * **
211683 TTTTTAATCTTTTATATTCTTATAGGTATCTGTAAGGGTATAAAAGATTCCGAAAAACATTTTGT
1 TTTTTAATCTTTTATATTCCTATGGGTATCTGTAAGGGTATAAAAGATTCTAAAAAAC-TTTTGT
* * *
211748 ATCTTTTCAAGTATCCATTAAGGTACGAAATGATTTTTTTCCAAACATAAATAAATA
65 ATC-TTTCAGGTATCCATTAAGGTACTAAATGATTTTTTTCCAAAAATAAATAAATA
211805 TTAATCATTT
Statistics
Matches: 252, Mismatches: 28, Indels: 11
0.87 0.10 0.04
Matches are distributed among these distances:
163 113 0.45
164 82 0.33
165 57 0.23
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (162 bp):
TTTTTAATCTTTTATATTCCTATGGGTATCTGTAAGGGTATAAAAGATTCTAAAAAACTTTTGTA
TCTTTCAGGTATCCATTAAGGTACTAAATGATTTTTTTCCAAAAATAAATAAATAATATTAAATT
CACTCACCATTAATTACAACAAATATTAATCA
Found at i:213743 original size:42 final size:42
Alignment explanation
Indices: 213696--213779 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
213686 TAAAGGGGGA
213696 AGATCAATAGATGAATCACCTATCTAATTGATCTTCAATGGT
1 AGATCAATAGATGAATCACCTATCTAATTGATCTTCAATGGT
213738 AGATCAATAGATGAATCACCTATCTAATTGATCTTCAATGGT
1 AGATCAATAGATGAATCACCTATCTAATTGATCTTCAATGGT
213780 CACTACAAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (42 bp):
AGATCAATAGATGAATCACCTATCTAATTGATCTTCAATGGT
Found at i:214984 original size:49 final size:49
Alignment explanation
Indices: 214915--215107 Score: 220
Period size: 49 Copynumber: 4.1 Consensus size: 49
214905 CGAAGAATGA
* * *
214915 CAATGTGCTGCTTCATGGCCAGCGACATT-GATCTTAAAGATGACGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGA-CTTAAAGATGACGGTGC
*
214964 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A--A-GGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGGTGC
* * * *
215007 CAATGTGTTGGTTCAAGGCCAGCGACATTGGACTTAAAGGTGACGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGGTGC
* * * *
215056 CAATATGCTGATTCAAGGCCAGCGATATTGGATTTAAAGATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGGTGC
215105 CAA
1 CAA
215108 CAACTTGTGT
Statistics
Matches: 120, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
43 36 0.30
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
49 77 0.64
50 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGGTGC
Found at i:215003 original size:22 final size:22
Alignment explanation
Indices: 214978--215046 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
214968 ATGCTGATTC
214978 AAGGCCAGCGATATTGGACTTA
1 AAGGCCAGCGATATTGGACTTA
** * *
215000 AAGGTGCCAATG-TGTTGG--TTC
1 AA-G-GCCAGCGATATTGGACTTA
*
215021 AAGGCCAGCGACATTGGACTTA
1 AAGGCCAGCGATATTGGACTTA
215043 AAGG
1 AAGG
215047 TGACGGTGCC
Statistics
Matches: 33, Mismatches: 9, Indels: 10
0.63 0.17 0.19
Matches are distributed among these distances:
19 5 0.15
20 5 0.15
21 4 0.12
22 8 0.24
23 6 0.18
24 5 0.15
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (22 bp):
AAGGCCAGCGATATTGGACTTA
Found at i:215022 original size:43 final size:43
Alignment explanation
Indices: 214959--215094 Score: 173
Period size: 43 Copynumber: 3.0 Consensus size: 43
214949 TAAAGATGAC
214959 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
* * * *
215002 GGTGCCAATGTGTTGGTTCAAGGCCAGCGACATTGGACTTAAAGGTGA
1 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AA----A
*
215050 CGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGATTTAAA
1 -GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
215094 G
1 G
215095 ATGAAGATGC
Statistics
Matches: 78, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
43 37 0.47
44 3 0.04
48 3 0.04
49 35 0.45
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (43 bp):
GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
Found at i:215072 original size:92 final size:92
Alignment explanation
Indices: 214915--215094 Score: 299
Period size: 92 Copynumber: 2.0 Consensus size: 92
214905 CGAAGAATGA
*
214915 CAATGTGCTGCTTCATGGCCAGCGACATTGATCTTAAAGATGACGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGCTTCAAGGCCAGCGACATTGATCTTAAAGATGACGGTGCCAATATGCTGATTCAA
214980 GGCCAGCGATATTGGACTTAAAGGTGC
66 GGCCAGCGATATTGGACTTAAAGGTGC
* * *
215007 CAATGTGTTGGTTCAAGGCCAGCGACATTGGA-CTTAAAGGTGACGGTGCCAATATGCTGATTCA
1 CAATGTGCTGCTTCAAGGCCAGCGACATT-GATCTTAAAGATGACGGTGCCAATATGCTGATTCA
*
215071 AGGCCAGCGATATTGGATTTAAAG
65 AGGCCAGCGATATTGGACTTAAAG
215095 ATGAAGATGC
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
92 80 0.98
93 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (92 bp):
CAATGTGCTGCTTCAAGGCCAGCGACATTGATCTTAAAGATGACGGTGCCAATATGCTGATTCAA
GGCCAGCGATATTGGACTTAAAGGTGC
Found at i:215155 original size:29 final size:28
Alignment explanation
Indices: 215108--215220 Score: 90
Period size: 29 Copynumber: 3.9 Consensus size: 28
215098 AAGATGCCAA
215108 CAACTTGTGTGGGCTTTTGATAGGGTTGCAC
1 CAACTTGTGT-GGCTTTTGA-A-GGTTGCAC
215139 CAACTTGTGT-GCTTTTGAAGGTTGC-C
1 CAACTTGTGTGGCTTTTGAAGGTTGCAC
* * **
215165 TCTGACTTGTG-GGCTTTTGAAAAGATACCAC
1 -C-AACTTGTGTGGCTTTTG--AAGGTTGCAC
*
215196 TAACTTGTG-GGCTTTTGAAGGTTGC
1 CAACTTGTGTGGCTTTTGAAGGTTGC
215221 CACTGACTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
26 1 0.01
27 12 0.18
28 15 0.22
29 23 0.34
30 5 0.07
31 11 0.16
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.36
Consensus pattern (28 bp):
CAACTTGTGTGGCTTTTGAAGGTTGCAC
Found at i:215254 original size:30 final size:30
Alignment explanation
Indices: 215156--215542 Score: 473
Period size: 30 Copynumber: 13.1 Consensus size: 30
215146 TGTGCTTTTG
* * *
215156 AAGGTTGCCTCTGACTTGTGGGCTTTTGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
* * * *
215186 AA-GATACCACTAACTTGTGGGCTTTTG--
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
* *
215213 AAGGTTGCCACTGACTTATGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
215243 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
* * *
215273 GAAGAGTGCCACTGATTTGTGGGCTTTGAAA
1 -AAGGGTGCCACTGACTTGTGGGCTTTGGAA
** *
215304 AATAGTGTCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
* *
215334 AA-GATGCCACTGACGTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
* *
215363 AA-GATGCCATTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
*
215392 AAAGGTGCCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
* *
215422 AAGAGTGCCACTGACTTGTGGGCTTTTGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
* * *
215452 AA-GATACCACTGACTCGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
215481 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
* *
215511 AATGGTGCCACTGACTTATGGGCTTT-GAA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA
215540 AAG
1 AAG
215543 AAAAAGGTGC
Statistics
Matches: 311, Mismatches: 40, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
27 2 0.01
28 20 0.06
29 102 0.33
30 160 0.51
31 27 0.09
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (30 bp):
AAGGGTGCCACTGACTTGTGGGCTTTGGAA
Found at i:215299 original size:89 final size:88
Alignment explanation
Indices: 215156--215543 Score: 489
Period size: 89 Copynumber: 4.4 Consensus size: 88
215146 TGTGCTTTTG
* * * * *
215156 AAGGTTGCCTCTGACTTGTGGGCTTTTGAAAAGATACCACTAACTTGTGGGCTTTTG-AAGGTTG
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATACCACTGACTTGTGGGCTTTGGAAAGGTTG
*
215220 CCACTGACTTATGGGCTTTGGAA
66 CCACTGACTTGTGGGCTTTGGAA
* * **
215243 AAGGGTGCCACTGACTTGTGGGCTTTGGAAGAAGAGTGCCACTGATTTGTGGGCTTT-GAAAAAT
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAA-AAGA-TACCACTGACTTGTGGGCTTTGGAAAGGT
*
215307 AGTGTCACTGACTTGTGGGCTTTGGAA
64 --TGCCACTGACTTGTGGGCTTTGGAA
* * * *
215334 AA-GATGCCACTGACGTGTGGGCTTTGGAAAAGATGCCATTGACTTGTGGGCTTTGGAAAAAGG-
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATACCACTGACTTGTGGGCTTTGG--AAAGGT
215397 TGCCACTGACTTGTGGGCTTTGGAA
64 TGCCACTGACTTGTGGGCTTTGGAA
* * * *
215422 AAGAGTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTCGTGGGCTTTGGAAAAGGGT
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATACCACTGACTTGTGGGCTTTGG-AAAGGTT
215487 GCCACTGACTTGTGGGCTTTGGAA
65 GCCACTGACTTGTGGGCTTTGGAA
* *
215511 AATGGTGCCACTGACTTATGGGCTTT-GAAAAGA
1 AAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGA
215544 AAAAGGTGCC
Statistics
Matches: 264, Mismatches: 27, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
87 27 0.10
88 63 0.24
89 121 0.46
90 25 0.09
91 28 0.11
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (88 bp):
AAGGGTGCCACTGACTTGTGGGCTTTGGAAAAGATACCACTGACTTGTGGGCTTTGGAAAGGTTG
CCACTGACTTGTGGGCTTTGGAA
Found at i:215395 original size:59 final size:58
Alignment explanation
Indices: 215161--215543 Score: 482
Period size: 59 Copynumber: 6.5 Consensus size: 58
215151 TTTTGAAGGT
* * * * * * *
215161 TGCCTCTGACTTGTGGGCTTTTGAAAAGATACCACTAACTTGTGGGCTTTTG-AAGGT
1 TGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGA
* *
215218 TGCCACTGACTTATGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAA-GATGCCACTGACTTGTGGGCTTTGGAA-AAGA
* * * *
215278 GTGCCACTGATTTGTGGGCTTTGAAAAATAGTGTCACTGACTTGTGGGCTTTGGAAAAGA
1 -TGCCACTGACTTGTGGGCTTTGGAAAAGA-TGCCACTGACTTGTGGGCTTTGGAAAAGA
* * *
215338 TGCCACTGACGTGTGGGCTTTGGAAAAGATGCCATTGACTTGTGGGCTTTGGAAAAAGG
1 TGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGG-AAAAGA
*
215397 TGCCACTGACTTGTGGGCTTTGGAAAAGAGTGCCACTGACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA-TGCCACTGACTTGTGGGCTTTGGAAAAGA
* * * *
215456 TACCACTGACTCGTGGGCTTTGGAAAAGGGTGCCACTGACTTGTGGGCTTTGGAAAATGG
1 TGCCACTGACTTGTGGGCTTTGGAAAA-GATGCCACTGACTTGTGGGCTTTGGAAAA-GA
*
215516 TGCCACTGACTTATGGGCTTT-GAAAAGA
1 TGCCACTGACTTGTGGGCTTTGGAAAAGA
215544 AAAAGGTGCC
Statistics
Matches: 282, Mismatches: 35, Indels: 17
0.84 0.10 0.05
Matches are distributed among these distances:
57 24 0.09
58 43 0.15
59 120 0.43
60 47 0.17
61 48 0.17
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.29
Consensus pattern (58 bp):
TGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTGGAAAAGA
Found at i:224783 original size:19 final size:19
Alignment explanation
Indices: 224726--224783 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
224716 TACAAGCCAA
* *
224726 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTGG
*
224746 TGTATCGATACATACTTGG
1 TGTATCGATACATATTTGG
*
224765 TGTATCGATACATGTTTGG
1 TGTATCGATACATATTTGG
224784 CTACTGCCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 22 0.67
20 11 0.33
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.43
Consensus pattern (19 bp):
TGTATCGATACATATTTGG
Found at i:227336 original size:13 final size:13
Alignment explanation
Indices: 227318--227342 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
227308 ATAATCACCC
227318 TGTATCGATACAT
1 TGTATCGATACAT
227331 TGTATCGATACA
1 TGTATCGATACA
227343 AAGAAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:231259 original size:21 final size:21
Alignment explanation
Indices: 231230--231274 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
231220 AAGTTTTTAT
*
231230 TTTTCTTAGCTAA-TTCATTA
1 TTTTCTTAGCCAAGTTCATTA
*
231250 TTTTCATTAGCCAAGTTCTTTA
1 TTTTC-TTAGCCAAGTTCATTA
231272 TTT
1 TTT
231275 CAACTTGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.22, C:0.16, G:0.07, T:0.56
Consensus pattern (21 bp):
TTTTCTTAGCCAAGTTCATTA
Found at i:231274 original size:22 final size:21
Alignment explanation
Indices: 231219--231274 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
231209 ATGAATCATG
231219 CAAGTT-TTTATTTTTCTTAGC
1 CAAGTTCTTTA-TTTTCTTAGC
* *
231240 TAA-TTCATTATTTTCATTAGC
1 CAAGTTCTTTATTTTC-TTAGC
231261 CAAGTTCTTTATTT
1 CAAGTTCTTTATTT
231275 CAACTTGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 7 0.25
21 12 0.43
22 9 0.32
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.55
Consensus pattern (21 bp):
CAAGTTCTTTATTTTCTTAGC
Found at i:233502 original size:13 final size:13
Alignment explanation
Indices: 233484--233509 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
233474 CAATTTTTTG
233484 TGTATCGATACAT
1 TGTATCGATACAT
233497 TGTATCGATACAT
1 TGTATCGATACAT
233510 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:233524 original size:32 final size:33
Alignment explanation
Indices: 233464--233528 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
233454 TACAAGCCAA
** *
233464 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
233497 TGTATCGATAC-ATACTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
233529 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:233632 original size:20 final size:20
Alignment explanation
Indices: 233579--233634 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
233569 ACATCTTTTT
*
233579 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
233599 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
233618 TTATGTATCGATACTTT
1 -CATGTATCGATACTTT
233635 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.39
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:238800 original size:42 final size:42
Alignment explanation
Indices: 238753--238836 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
238743 TAAAGGGGGA
*
238753 AGATCAATAGATGAATCGCCTATCTAATTGATCTTCAATGGT
1 AGATCAATAGATAAATCGCCTATCTAATTGATCTTCAATGGT
238795 AGATCAATAGATAAATCGCCTATCTAATTGATCTTCAATGGT
1 AGATCAATAGATAAATCGCCTATCTAATTGATCTTCAATGGT
238837 CACTACAAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (42 bp):
AGATCAATAGATAAATCGCCTATCTAATTGATCTTCAATGGT
Found at i:241865 original size:52 final size:52
Alignment explanation
Indices: 241758--241873 Score: 153
Period size: 52 Copynumber: 2.2 Consensus size: 52
241748 TTTGCCTGCA
* * *** *
241758 TGTATCGATACATCTAGGCAAATTTGCCTGCATGTATCGATGCATTTTATTG
1 TGTATCGATACATCTAGGCAAATTTGCCTGCAAGTATCGATACATAAGATAG
*
241810 TGTATCGATACATCTGGGCAAATTTGCCTGCAAGTATCGATACA-AAGATCAG
1 TGTATCGATACATCTAGGCAAATTTGCCTGCAAGTATCGATACATAAGAT-AG
241862 TGTATCGATACA
1 TGTATCGATACA
241874 ATGTATCGAT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 2 0.04
52 54 0.96
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (52 bp):
TGTATCGATACATCTAGGCAAATTTGCCTGCAAGTATCGATACATAAGATAG
Found at i:241880 original size:13 final size:13
Alignment explanation
Indices: 241862--241886 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
241852 CAAAGATCAG
241862 TGTATCGATACAA
1 TGTATCGATACAA
241875 TGTATCGATACA
1 TGTATCGATACA
241887 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:241953 original size:19 final size:19
Alignment explanation
Indices: 241929--241993 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
241919 TAGCTTACAT
241929 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
241948 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
241961 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
241980 TGTATCGATACAAA
1 TGTATCGATACAAA
241994 TCGTTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:241964 original size:32 final size:32
Alignment explanation
Indices: 241924--242092 Score: 157
Period size: 32 Copynumber: 5.1 Consensus size: 32
241914 GGCAGTAGCT
*
241924 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
241956 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
* * * * * *
241988 TACAAATCGT-T-GAAATTCAA-AATT-TTTAACCGT
1 TAC--ATTGTATCG--ATACAACACTTATGT-ATCGA
*
242021 TGGGACCTTGTATCGATACAACACTTATGTATCGA
1 T---ACATTGTATCGATACAACACTTATGTATCGA
242056 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
242089 TACA
1 TACA
242093 AATCGTTGAA
Statistics
Matches: 109, Mismatches: 15, Indels: 25
0.73 0.10 0.17
Matches are distributed among these distances:
32 56 0.51
33 23 0.21
34 17 0.16
35 8 0.07
36 5 0.05
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:241966 original size:13 final size:13
Alignment explanation
Indices: 241948--241972 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
241938 ACAAAACTTA
241948 TGTATCGATACAT
1 TGTATCGATACAT
241961 TGTATCGATACA
1 TGTATCGATACA
241973 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:242040 original size:100 final size:100
Alignment explanation
Indices: 241928--242133 Score: 387
Period size: 100 Copynumber: 2.1 Consensus size: 100
241918 GTAGCTTACA
241928 TTGTATCGATACAAAACTTATGTATCGATACATTGTATCGATACAACAC-TTATGTATCGATACA
1 TTGTATCGATACAAAACTTATGTATCGATACATTGTATCGATACAACACTTTATGTATCGATACA
241992 AATCGTTGAAATTCAAAATTTTTAACCGTTGGGACC
66 AATCGTTGAAATTCAAAA-TTTTAACCGTTGGGACC
*
242028 TTGTATCGATACAACACTTATGTATCGATACATTGTATCGATACAACACTTTATGTATCGATACA
1 TTGTATCGATACAAAACTTATGTATCGATACATTGTATCGATACAACACTTTATGTATCGATACA
242093 AATCGTTGAAATTCAAAATTTTAACCGTTGGGACC
66 AATCGTTGAAATTCAAAATTTTAACCGTTGGGACC
242128 TTGTAT
1 TTGTAT
242134 ACATTCTAAC
Statistics
Matches: 104, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
100 71 0.68
101 33 0.32
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (100 bp):
TTGTATCGATACAAAACTTATGTATCGATACATTGTATCGATACAACACTTTATGTATCGATACA
AATCGTTGAAATTCAAAATTTTAACCGTTGGGACC
Found at i:242066 original size:13 final size:13
Alignment explanation
Indices: 242048--242072 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
242038 ACAACACTTA
242048 TGTATCGATACAT
1 TGTATCGATACAT
242061 TGTATCGATACA
1 TGTATCGATACA
242073 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:242708 original size:80 final size:80
Alignment explanation
Indices: 242570--242735 Score: 271
Period size: 80 Copynumber: 2.1 Consensus size: 80
242560 AGGCAGTGAA
* *
242570 AAACCTACCGGGTGTAAATTCCTACGCTTACTCGAGGTGTTAGCCTTGTTACAAGCATGGAAGAT
1 AAACCTACCGGGTGTAAATTCCTACGCTTACCCGAGGTGTTAGCCTCGTTACAAGCATGGAAGAT
*
242635 ACTCT-CACTCGAATT
66 ACT-TGCACTAGAATT
**
242650 AAACCTACCGGGTGTAAATTCCTACGCTTACCCGAGGTGTTAGCCTCGTTACGGGCATGGAAGAT
1 AAACCTACCGGGTGTAAATTCCTACGCTTACCCGAGGTGTTAGCCTCGTTACAAGCATGGAAGAT
242715 ACTTGCACTAGAATT
66 ACTTGCACTAGAATT
242730 AAACCT
1 AAACCT
242736 TCTCTGACTT
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
79 1 0.01
80 79 0.99
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (80 bp):
AAACCTACCGGGTGTAAATTCCTACGCTTACCCGAGGTGTTAGCCTCGTTACAAGCATGGAAGAT
ACTTGCACTAGAATT
Found at i:251476 original size:13 final size:13
Alignment explanation
Indices: 251458--251482 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
251448 ATTACTCAAA
251458 TGTATCGATACAT
1 TGTATCGATACAT
251471 TGTATCGATACA
1 TGTATCGATACA
251483 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:251535 original size:52 final size:52
Alignment explanation
Indices: 251491--251614 Score: 203
Period size: 52 Copynumber: 2.4 Consensus size: 52
251481 CACTGATCTT
*
251491 TGTATCGATACATGGAGGCAAATTTGCCCACATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCACATGTATCGATACACTATAAAA
* * *
251543 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTTTTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCACATGTATCGATACACTATAAAA
*
251595 TGTATCGATACATGCGGGCA
1 TGTATCGATACATGCAGGCA
251615 GCTTTTCATA
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCACATGTATCGATACACTATAAAA
Found at i:255707 original size:31 final size:32
Alignment explanation
Indices: 255648--255707 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
255638 AAGTTGCCAA
*
255648 TAAAAACATTAAAAAGATTGGGGAAAAAATGG
1 TAAAAACATTAAAAAGATTGGGCAAAAAATGG
*
255680 TAAAAAC-TTACAAAGATT-GGCATAAAAA
1 TAAAAACATTAAAAAGATTGGGCA-AAAAA
255708 GCTCTCTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 3 0.12
31 15 0.60
32 7 0.28
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (32 bp):
TAAAAACATTAAAAAGATTGGGCAAAAAATGG
Found at i:256499 original size:20 final size:20
Alignment explanation
Indices: 256474--256546 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
256464 ACAATTCAAA
256474 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
* ****
256494 GGATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
256515 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
256535 GTATCGATACAT
1 GTATCGATACAT
256547 AAAAAAGATG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.30
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:256522 original size:21 final size:21
Alignment explanation
Indices: 256496--256567 Score: 92
Period size: 21 Copynumber: 3.5 Consensus size: 21
256486 GTTGCAATGG
256496 ATCGATACATGAAAAAGATGT
1 ATCGATACATGAAAAAGATGT
****
256517 ATCGATACATGTTGCA-ATGT
1 ATCGATACATGAAAAAGATGT
*
256537 ATCGATACATAAAAAAGATGT
1 ATCGATACATGAAAAAGATGT
256558 ATCGATACAT
1 ATCGATACAT
256568 TTCTTGGCAG
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 15 0.37
21 26 0.63
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (21 bp):
ATCGATACATGAAAAAGATGT
Found at i:256523 original size:41 final size:41
Alignment explanation
Indices: 256474--256567 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
256464 ACAATTCAAA
*
256474 GTATCGATACATGTTGCAATGGATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGGATCGATACATAAAAAAGAT
*
256515 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGGATCGATACATAAAAAAGAT
256556 GTATCGATACAT
1 GTATCGATACAT
256568 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGGATCGATACATAAAAAAGAT
Found at i:256624 original size:13 final size:13
Alignment explanation
Indices: 256606--256631 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
256596 TACAGCAAGT
256606 ATGTATCGATACA
1 ATGTATCGATACA
256619 ATGTATCGATACA
1 ATGTATCGATACA
256632 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:260713 original size:15 final size:15
Alignment explanation
Indices: 260693--260723 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
260683 TAAAAATGTC
*
260693 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
260708 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
260723 C
1 C
260724 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:262820 original size:20 final size:21
Alignment explanation
Indices: 262741--262819 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
262731 AATGTCCAAA
*
262741 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
262761 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
262786 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
262806 TTGTATCGATACAT
1 ATGTATCGATACAT
262820 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:262824 original size:13 final size:13
Alignment explanation
Indices: 262806--262844 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
262796 ACATTTTTCT
262806 TTGTATCGATACA
1 TTGTATCGATACA
262819 TTGTATCGATACA
1 TTGTATCGATACA
*
262832 CTGTATCGATACA
1 TTGTATCGATACA
262845 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:264639 original size:36 final size:36
Alignment explanation
Indices: 264592--264699 Score: 207
Period size: 36 Copynumber: 3.0 Consensus size: 36
264582 AGTGCAAATA
264592 AATTTTGATATGAATTACTTGATTAATGGGGAGATT
1 AATTTTGATATGAATTACTTGATTAATGGGGAGATT
264628 AATTTTGATATGAATTACTTGATTAATGGGGAGATT
1 AATTTTGATATGAATTACTTGATTAATGGGGAGATT
*
264664 AATTTTGATATGAATTACTTGATTAAGGGGGAGATT
1 AATTTTGATATGAATTACTTGATTAATGGGGAGATT
264700 TATTAATAAA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
36 71 1.00
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.41
Consensus pattern (36 bp):
AATTTTGATATGAATTACTTGATTAATGGGGAGATT
Found at i:265347 original size:20 final size:20
Alignment explanation
Indices: 265324--265396 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
265314 ACAATTCAAA
265324 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
265344 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
265365 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
265385 GTATCGATACAT
1 GTATCGATACAT
265397 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:265368 original size:21 final size:21
Alignment explanation
Indices: 265342--265417 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
265332 ACATGTTGCA
265342 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
265363 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
265383 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
265404 ATGTATCGATACAT
1 ATGTATCGATACAT
265418 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:265375 original size:41 final size:41
Alignment explanation
Indices: 265324--265417 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
265314 ACAATTCAAA
*
265324 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
265365 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
265406 GTATCGATACAT
1 GTATCGATACAT
265418 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:265474 original size:13 final size:13
Alignment explanation
Indices: 265456--265514 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 13
265446 TACAGCAAGT
265456 ATGTATCGATACA
1 ATGTATCGATACA
265469 ATGTATCGATACACAAAAA
1 ATGTATCGAT--AC----A
265488 ATTGTATCGATACA
1 A-TGTATCGATACA
265502 ATGTATCGATACA
1 ATGTATCGATACA
265515 CAAAAAATTG
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 22 0.56
14 2 0.05
15 2 0.05
18 2 0.05
19 2 0.05
20 9 0.23
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:265495 original size:20 final size:20
Alignment explanation
Indices: 265470--265534 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
265460 ATCGATACAA
265470 TGTATCGATACACAAAAAAT
1 TGTATCGATACACAAAAAAT
265490 TGTATCGAT--AC----AA-
1 TGTATCGATACACAAAAAAT
265503 TGTATCGATACACAAAAAAT
1 TGTATCGATACACAAAAAAT
265523 TGTATCGATACA
1 TGTATCGATACA
265535 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 9 0.24
14 2 0.05
15 2 0.05
18 2 0.05
19 2 0.05
20 21 0.55
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (20 bp):
TGTATCGATACACAAAAAAT
Found at i:265499 original size:33 final size:33
Alignment explanation
Indices: 265457--265534 Score: 156
Period size: 33 Copynumber: 2.4 Consensus size: 33
265447 ACAGCAAGTA
265457 TGTATCGATACAATGTATCGATACACAAAAAAT
1 TGTATCGATACAATGTATCGATACACAAAAAAT
265490 TGTATCGATACAATGTATCGATACACAAAAAAT
1 TGTATCGATACAATGTATCGATACACAAAAAAT
265523 TGTATCGATACA
1 TGTATCGATACA
265535 TTGGCTTGTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (33 bp):
TGTATCGATACAATGTATCGATACACAAAAAAT
Found at i:267081 original size:78 final size:77
Alignment explanation
Indices: 266942--267124 Score: 165
Period size: 78 Copynumber: 2.4 Consensus size: 77
266932 CCCAAAGGCT
* * * *
266942 AGATGATATTGGTGCGTCACAAGGCCAAAGGAGGCATTTCACACATATTCTCAATCATAT-CCTT
1 AGATGATATTGGTGCATCACATGGCCAAAGGAGG-ATTTCACACACATTCCCAATCATATCCCTT
* * *
267006 CCTTTCCAAATACC
65 -ATTCCCAAACACC
* * * * *
267020 AGATGATATTGGTGCATCACATGGCCAAGAGGGATG-TTTCCCATACATTCCCAGTCGTATCCCT
1 AGATGATATTGGTGCATCACATGGCCAA-A-GGAGGATTTCACACACATTCCCAATCATATCCCT
*
267084 TATTCCCAAACACT
64 TATTCCCAAACACC
* *
267098 AAAT-AGTATTGATGCATCACATGGCCA
1 AGATGA-TATTGGTGCATCACATGGCCA
267125 TAAAAGGCAC
Statistics
Matches: 86, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
77 1 0.01
78 76 0.88
79 5 0.06
80 4 0.05
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (77 bp):
AGATGATATTGGTGCATCACATGGCCAAAGGAGGATTTCACACACATTCCCAATCATATCCCTTA
TTCCCAAACACC
Found at i:267782 original size:125 final size:126
Alignment explanation
Indices: 267559--268011 Score: 386
Period size: 125 Copynumber: 3.6 Consensus size: 126
267549 GTCCACCTTC
* * * * * * *
267559 CTTAGACTTGAGAGACTTTCTT-ATCTTTCATTTGCCCATCGGTTTACACT-TGAGAGACTTCTC
1 CTTAGACTCGAGAGAC-TTCTTCATCTTTCATCTACCTATCGGTTTAGACTCAGA-AGACTTCTT
* * ** * * * *
267622 CATCTTTTGTTTGTCTGTC-GACTTAGACTC-AGAGACTTCTTCATCTTTTATTTGCCCTTCTG
64 CATCTTTTGTCTGCCCATCAG-CTTAGACCCGAGAGACTTCTTCATCTTTTGTCTGCCCTTCAG
* * * *
267684 TTTAGACCCGAAAGACTTCTTCATCTTTCATCTACCTATCGGTTTAGACTC-GAAGACTTTTTCA
1 CTTAGACTCGAGAGACTTCTTCATCTTTCATCTACCTATCGGTTTAGACTCAGAAGACTTCTTCA
* *
267748 TCTTTTGTCTGCCCATCAGCTTAGACCCGAGAGACTTCTTCATCTTTCGTCTGCCCGTCAG
66 TCTTTTGTCTGCCCATCAGCTTAGACCCGAGAGACTTCTTCATCTTTTGTCTGCCCTTCAG
* * * * * * ** * * **
267809 CTCAAACTTGGGAGGCTTCTTCGTCTTTTGTCTACCTATCGGCTTAGAC-CTGAAGGACTTCCAC
1 CTTAGACTCGAGAGACTTCTTCATCTTTCATCTACCTATCGGTTTAGACTCAGAA-GACTTCTTC
* * * * **
267873 ATCTTTTGTCTACCCATCAG-TTTGACCTGGGAGACTTCTTCAT-TTTTCGTCAACCCGTT-AG
65 ATCTTTTGTCTGCCCATCAGCTTAGACCCGAGAGACTTCTTCATCTTTT-GTCTGCCC-TTCAG
* * * *
267934 CTTAGACTC-AGGAGACTTCTTCAACTTTCATCTACCTGTCGGTTTAGACCCAGGAGACTTCTTC
1 CTTAGACTCGA-GAGACTTCTTCATCTTTCATCTACCTATCGGTTTAGACTCAGAAGACTTCTTC
267998 ATCTTTTGTCTGCC
65 ATCTTTTGTCTGCC
268012 TATCGGCTCA
Statistics
Matches: 259, Mismatches: 59, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
124 39 0.15
125 191 0.74
126 29 0.11
ACGTcount: A:0.19, C:0.27, G:0.16, T:0.38
Consensus pattern (126 bp):
CTTAGACTCGAGAGACTTCTTCATCTTTCATCTACCTATCGGTTTAGACTCAGAAGACTTCTTCA
TCTTTTGTCTGCCCATCAGCTTAGACCCGAGAGACTTCTTCATCTTTTGTCTGCCCTTCAG
Found at i:267800 original size:42 final size:42
Alignment explanation
Indices: 267559--268130 Score: 253
Period size: 42 Copynumber: 13.7 Consensus size: 42
267549 GTCCACCTTC
** * *
267559 CTTAGACTTGAGAGACTTTCTT-ATCTTTCATTTGCCCATCGG
1 CTTAGACCCGAGAGAC-TTCTTCATCTTTCGTCTGCCCATCGG
* * ** * * * * ** *
267601 TTTACACTTGAGAGACTTCTCCATCTTTTGTTTGTCTGTCGA
1 CTTAGACCCGAGAGACTTCTTCATCTTTCGTCTGCCCATCGG
* ** * * *
267643 CTTAGACTC-AGAGACTTCTTCATCTTTTATTTGCCCTTCTG
1 CTTAGACCCGAGAGACTTCTTCATCTTTCGTCTGCCCATCGG
* * * * *
267684 TTTAGACCCGAAAGACTTCTTCATCTTTCATCTACCTATCGG
1 CTTAGACCCGAGAGACTTCTTCATCTTTCGTCTGCCCATCGG
* * * * *
267726 TTTAGACTCGA-AGACTTTTTCATCTTTTGTCTGCCCATCAG
1 CTTAGACCCGAGAGACTTCTTCATCTTTCGTCTGCCCATCGG
* *
267767 CTTAGACCCGAGAGACTTCTTCATCTTTCGTCTGCCCGTCAG
1 CTTAGACCCGAGAGACTTCTTCATCTTTCGTCTGCCCATCGG
* * ** * * * * * *
267809 CTCAAACTTGGGAGGCTTCTTCGTCTTTTGTCTACCTATCGG
1 CTTAGACCCGAGAGACTTCTTCATCTTTCGTCTGCCCATCGG
* ** * * *
267851 CTTAGACCTGA-AGGACTTCCACATCTTTTGTCTACCCATCAG
1 CTTAGACCCGAGA-GACTTCTTCATCTTTCGTCTGCCCATCGG
* * * * ** * **
267893 -TTTGACCTGGGAGACTTCTTCATTTTTCGTCAACCCGTTAG
1 CTTAGACCCGAGAGACTTCTTCATCTTTCGTCTGCCCATCGG
* * * * **
267934 CTTAGACTC-AGGAGACTTCTTCAACTTTCATCTACCTGTCGG
1 CTTAGACCCGA-GAGACTTCTTCATCTTTCGTCTGCCCATCGG
* * *
267976 TTTAGACCC-AGGAGACTTCTTCATCTTTTGTCTGCCTATCGG
1 CTTAGACCCGA-GAGACTTCTTCATCTTTCGTCTGCCCATCGG
* * * * **
268018 CTCA-AACCTAGAAGGCTTCTTCATCCATCGTCTGCCCATCGG
1 CTTAGACCCGAG-AGACTTCTTCATCTTTCGTCTGCCCATCGG
* * * * * * * ** *
268060 CTCAGTCTCGGGAGACTTTCTTTAT-TAATCGTCTTCCTGTTGG
1 CTTAGACCCGAGAGAC-TTCTTCATCT-TTCGTCTGCCCATCGG
* *
268103 CTCAGACCCGAGAAACTTCTTCATCTTT
1 CTTAGACCCGAGAGACTTCTTCATCTTT
268131 TTTTTCCTTG
Statistics
Matches: 402, Mismatches: 115, Indels: 26
0.74 0.21 0.05
Matches are distributed among these distances:
41 104 0.26
42 264 0.66
43 34 0.08
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.37
Consensus pattern (42 bp):
CTTAGACCCGAGAGACTTCTTCATCTTTCGTCTGCCCATCGG
Found at i:270749 original size:163 final size:161
Alignment explanation
Indices: 270422--270871 Score: 602
Period size: 163 Copynumber: 2.8 Consensus size: 161
270412 AACATCTATT
* * *
270422 ATTTTTTAATCTTTTGTATTCCTATAGGTATCCATAGGAGTATAAAAGATTTCGAAAAACTTGTC
1 ATTTTTTAATCTTTTATATTCCTATAGGTATCCATAGGGGTATAAAAGATTTCGAAAAACTT-TT
*
270487 ATATCTTTTAAGGTATCCATTAAGATACGAAATGATTTTTTTCCAAAAATAAATAAATAATATTA
65 ATATCTTTT-AGGTATCCATTAAGGTACGAAATGA-TTTTTTCCAAAAATAAATAAATAATATTA
* *
270552 AATTCACTCCTTGTTAATTACAAAAATGTTAATC
128 AATTCACTCCTCGTTAATTACAAAAATATTAATC
* * * *
270586 ATTTTTTAATTTTTTATGTTCC-ATGGGTATCCATAGGGGTATAAAAGATTACGAAAAACTCTTT
1 ATTTTTTAATCTTTTATATTCCTATAGGTATCCATAGGGGTATAAAAGATTTCGAAAAACT-TTT
* * *
270650 TTATCTTTTTGGATATCCATTAAGGTACGAAAAGTATTTTTT-CAAAAATAAATAAATAATATTA
65 ATATCTTTTAGG-TATCCATTAAGGTACGAAATG-ATTTTTTCCAAAAATAAATAAATAATATTA
270714 AATTCACT-CTCCGTTAATTACAAAAAATATTAATC
128 AATTCACTCCT-CGTTAATTAC-AAAAATATTAATC
* * * *
270749 A-TTTTTAATCTTTTATATTCCTATAGGTATCCGTACGGGTACAAAAGATTTTGAAAAACTTTTC
1 ATTTTTTAATCTTTTATATTCCTATAGGTATCCATAGGGGTATAAAAGATTTCGAAAAACTTTT-
* *
270813 ATATCTTTTCGGGTATCCATTAAGGTACGAAATGATCTTTTTCCAAACATAAATAAATA
65 ATATCTTTT-AGGTATCCATTAAGGTACGAAATGAT-TTTTTCCAAAAATAAATAAATA
270872 TTAATCATTT
Statistics
Matches: 251, Mismatches: 25, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
161 2 0.01
162 64 0.25
163 147 0.59
164 38 0.15
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.40
Consensus pattern (161 bp):
ATTTTTTAATCTTTTATATTCCTATAGGTATCCATAGGGGTATAAAAGATTTCGAAAAACTTTTA
TATCTTTTAGGTATCCATTAAGGTACGAAATGATTTTTTCCAAAAATAAATAAATAATATTAAAT
TCACTCCTCGTTAATTACAAAAATATTAATC
Found at i:275767 original size:21 final size:21
Alignment explanation
Indices: 275734--275778 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
275724 TTGCAAGTTG
*
275734 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
275756 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
275776 AAA
1 AAA
275779 ATGAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:277587 original size:15 final size:15
Alignment explanation
Indices: 277567--277597 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
277557 TAAAAATGTC
*
277567 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
277582 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
277597 C
1 C
277598 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:279676 original size:13 final size:13
Alignment explanation
Indices: 279658--279682 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
279648 GGAAATTCAA
279658 TGTATCGATACAT
1 TGTATCGATACAT
279671 TGTATCGATACA
1 TGTATCGATACA
279683 GGGTGATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:282257 original size:13 final size:13
Alignment explanation
Indices: 282239--282263 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
282229 ACAGCAAGTA
282239 TGTATCGATACAT
1 TGTATCGATACAT
282252 TGTATCGATACA
1 TGTATCGATACA
282264 CAAAAAATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:287672 original size:20 final size:20
Alignment explanation
Indices: 287648--287700 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
287638 TACACATTTA
287648 ATTGTATCGATACATGTTGC
1 ATTGTATCGATACATGTTGC
* *
287668 GTTGTATCGATACCTGTTGC
1 ATTGTATCGATACATGTTGC
287688 ATTGTATCGATAC
1 ATTGTATCGATAC
287701 TTCAAAAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (20 bp):
ATTGTATCGATACATGTTGC
Found at i:289387 original size:9 final size:9
Alignment explanation
Indices: 289373--289400 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
289363 CATCAAGGAC
289373 GATGAAGAT
1 GATGAAGAT
289382 GATGAAGAT
1 GATGAAGAT
289391 GATGAAGAT
1 GATGAAGAT
289400 G
1 G
289401 TTGATGAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.36, T:0.21
Consensus pattern (9 bp):
GATGAAGAT
Found at i:296451 original size:20 final size:20
Alignment explanation
Indices: 296428--296476 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
296418 CATTTAATTA
296428 TATCGATACATGTTGCATTG
1 TATCGATACATGTTGCATTG
*
296448 TATCGATACCTGTTGCATTG
1 TATCGATACATGTTGCATTG
296468 TATCGATAC
1 TATCGATAC
296477 TTCAAAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (20 bp):
TATCGATACATGTTGCATTG
Found at i:296568 original size:13 final size:13
Alignment explanation
Indices: 296550--296574 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
296540 ACACATAGTA
296550 TGTATCGATACAT
1 TGTATCGATACAT
296563 TGTATCGATACA
1 TGTATCGATACA
296575 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:296571 original size:32 final size:33
Alignment explanation
Indices: 296530--296597 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
296520 GTAGCCAAAC
**
296530 TTGTATCGATACA-CATAGTATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
296562 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
296595 TTG
1 TTG
296598 GCCTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:310443 original size:20 final size:21
Alignment explanation
Indices: 310418--310473 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
310408 TTTTGGACCA
*
310418 AAATGTATTGATACATA-GCC
1 AAATGTATCGATACATAGGCC
*
310438 AAATGTATCAATACATAGGCC
1 AAATGTATCGATACATAGGCC
*
310459 -AACGTATCGATACAT
1 AAATGTATCGATACAT
310474 TTAAGTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 28 0.90
21 3 0.10
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (21 bp):
AAATGTATCGATACATAGGCC
Found at i:311044 original size:16 final size:17
Alignment explanation
Indices: 311023--311061 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
311013 TCATAGCCGT
311023 TAAAAAACAAA-AGAAA
1 TAAAAAACAAATAGAAA
*
311039 T-AAAAACAAATTGAAA
1 TAAAAAACAAATAGAAA
311055 TAAAAAA
1 TAAAAAA
311062 AAGTAGCTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 9 0.45
16 6 0.30
17 5 0.25
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.13
Consensus pattern (17 bp):
TAAAAAACAAATAGAAA
Found at i:311045 original size:15 final size:16
Alignment explanation
Indices: 311025--311060 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
311015 ATAGCCGTTA
311025 AAAAACAAA-AGAAAT
1 AAAAACAAATAGAAAT
*
311040 AAAAACAAATTGAAAT
1 AAAAACAAATAGAAAT
311056 AAAAA
1 AAAAA
311061 AAAGTAGCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.78, C:0.06, G:0.06, T:0.11
Consensus pattern (16 bp):
AAAAACAAATAGAAAT
Found at i:312058 original size:21 final size:21
Alignment explanation
Indices: 312029--312069 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
312019 AAAGGTCAAA
312029 ACCCTAGAAAGTATCGATACAG
1 ACCCTAG-AAGTATCGATACAG
312051 ACCC-AGAAGTATCGATACA
1 ACCCTAGAAGTATCGATACA
312070 TATTGCTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.68
21 2 0.11
22 4 0.21
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (21 bp):
ACCCTAGAAGTATCGATACAG
Found at i:312209 original size:13 final size:13
Alignment explanation
Indices: 312191--312215 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
312181 TACATGGTAC
312191 ATTGTATCGATAT
1 ATTGTATCGATAT
312204 ATTGTATCGATA
1 ATTGTATCGATA
312216 AATAGTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (13 bp):
ATTGTATCGATAT
Found at i:321075 original size:21 final size:21
Alignment explanation
Indices: 321050--321101 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
321040 GCTCTCCCCC
321050 TTAATACAAACGTTCTTCCCT
1 TTAATACAAACGTTCTTCCCT
*
321071 TTAATACAAATGTTCTTCCCT
1 TTAATACAAACGTTCTTCCCT
321092 TTAATACAAA
1 TTAATACAAA
321102 ATTTATACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.38
Consensus pattern (21 bp):
TTAATACAAACGTTCTTCCCT
Found at i:321953 original size:13 final size:13
Alignment explanation
Indices: 321935--321959 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
321925 ACTGAAGCAA
321935 TGTATCGATACAT
1 TGTATCGATACAT
321948 TGTATCGATACA
1 TGTATCGATACA
321960 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:323647 original size:84 final size:84
Alignment explanation
Indices: 323492--323656 Score: 201
Period size: 84 Copynumber: 2.0 Consensus size: 84
323482 CATTTTCCAC
* * * *
323492 TTGCAACTCATTTCTTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAGAATTATTTTCTAAAC
1 TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
323557 TAATTGATTTACTTTCATT
66 TAATTGATTTACTTTCATT
* *
323576 TTGCAACTC-TTTCATATTCTTCTCTAATTCACTTAATTTC-TTTT-CAAGAATATCATTCTCTA
1 TTGCAACTCATTTC-TATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAAT-T-ATTCTCTA
* * *
323638 CACTTATTGATTTATTTTC
63 AACTAATTGATTTACTTTC
323657 TTCTTTGAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
82 6 0.09
83 9 0.13
84 54 0.78
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.52
Consensus pattern (84 bp):
TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
TAATTGATTTACTTTCATT
Found at i:327963 original size:22 final size:23
Alignment explanation
Indices: 327890--327966 Score: 86
Period size: 23 Copynumber: 3.3 Consensus size: 23
327880 TTCTTGTTTG
*
327890 TTTTTCTTTT-CTATTTC-ATTTC
1 TTTTTTTTTTGCTATTTCGA-TTC
* *
327912 TTTCTTCTTTTTGCTGTTTTGATTC
1 TTT-TT-TTTTTGCTATTTCGATTC
327937 TTTTTTTTTTGCTATTTCGATTC
1 TTTTTTTTTTGCTATTTCGATTC
327960 TTTTTTT
1 TTTTTTT
327967 GTTTCGATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
22 3 0.07
23 25 0.54
24 6 0.13
25 11 0.24
26 1 0.02
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.73
Consensus pattern (23 bp):
TTTTTTTTTTGCTATTTCGATTC
Found at i:327976 original size:23 final size:23
Alignment explanation
Indices: 327909--327976 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
327899 TCTATTTCAT
*
327909 TTCTTTCTTCTTTTTGCTG-TTTTGA
1 TTCTTT-TT-TTTTTGC-GATTTCGA
*
327934 TTCTTTTTTTTTTGCTATTTCGA
1 TTCTTTTTTTTTTGCGATTTCGA
327957 TTCTTTTTTTGTTT-CGATTT
1 TTCTTTTTTT-TTTGCGATTT
327977 TTTTTTGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 27 0.71
24 5 0.13
25 6 0.16
ACGTcount: A:0.06, C:0.13, G:0.10, T:0.71
Consensus pattern (23 bp):
TTCTTTTTTTTTTGCGATTTCGA
Done.